ucabuk

SNPRelate for organelle genome (mitochondria or chloroplast)

2

Hi, I am working on variant analysis of organelle genome but I could not make sure If I use my output files in SNPRelate for this purporse. Because method parameter...

Running without species but including dfam+repbase

1

Hi, I was wondering If it is possible to run RepeatMasker without species ? Actually, I am a bit confused because I am currently using dfam+repbase and wanted to include...

Time complexity

2

Hi, I am using diamond to get the taxonomic information of the protein. Here is my code that I use in the cluster: `diamond blastp -d nr --evalue 0.00001 --top...

Inconsistent result between EggNOG database 5.0 and eggnog-mapper

5

Hello, I noticed that some of the genes I have were assigned to eukaryotes as a result of diamond blastp, but when I used eggnog-mapper they were assigned to prokaryote...

**Is the bug primarily related to salmon (bulk mode) or alevin (single-cell mode)?** Salmon index **Describe the bug** Hi, I have tried a big reference file before and It was...

Split big CDS to subCDS using gff

1

Hello Eli, I want to split one big predicted protein to exons according to their gff file. I have three output `.fas .codon.fas .headersMap.tsv` and `.gff` produced by Metaeuk. In...

Can I highlight pathway instead of modules in pathway?

1

Hi, I want to show metabolic pathway in KEGG and then I want to highlight line of the subpathway rather than the module. Is it possible to do that using...